data_1RFN # _model_server_result.job_id zvE7aKD0BrzSF-lO0QKWag _model_server_result.datetime_utc '2024-11-19 23:37:05' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 1rfn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":501}' # _entry.id 1RFN # _exptl.entry_id 1RFN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 136.174 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'P-AMINO BENZAMIDINE' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 120 _cell.entry_id 1RFN _cell.length_a 90.9 _cell.length_b 90.9 _cell.length_c 151.6 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1RFN _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 26 A CYS 42 1_555 A SG CYS 42 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 109 A CYS 122 1_555 B SG CYS 47 B CYS 132 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf3 A SG CYS 156 A CYS 168 1_555 A SG CYS 170 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf4 A SG CYS 181 A CYS 191 1_555 A SG CYS 209 A CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf5 B SG CYS 3 B CYS 88 1_555 B SG CYS 14 B CYS 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf6 B SG CYS 10 B CYS 95 1_555 B SG CYS 24 B CYS 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf7 B SG CYS 26 B CYS 111 1_555 B SG CYS 39 B CYS 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? metalc ? metalc1 A OE2 GLU 55 A GLU 70 1_555 C CA CA . A CA 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.98 ? metalc ? metalc2 A OE1 GLU 55 A GLU 70 1_555 C CA CA . A CA 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.012 ? metalc ? metalc3 A O ASN 57 A ASN 72 1_555 C CA CA . A CA 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc4 A O GLU 60 A GLU 75 1_555 C CA CA . A CA 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.431 ? metalc ? metalc5 A OE1 GLU 62 A GLU 77 1_555 C CA CA . A CA 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? metalc ? metalc6 A OE2 GLU 65 A GLU 80 1_555 C CA CA . A CA 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.219 ? # _chem_comp.formula 'C7 H10 N3 1' _chem_comp.formula_weight 136.174 _chem_comp.id PBZ _chem_comp.mon_nstd_flag . _chem_comp.name 'P-AMINO BENZAMIDINE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag N2 C7 PBZ sing 237 n n N2 HN21 PBZ sing 238 n n N2 HN22 PBZ sing 239 n n N3 C7 PBZ doub 240 n n N3 HN31 PBZ sing 241 n n N3 HN32 PBZ sing 242 n n C7 C4 PBZ sing 243 n n C4 C3 PBZ sing 244 n y C4 C5 PBZ doub 245 n y C2 C3 PBZ doub 246 n y C2 C1 PBZ sing 247 n y C2 H2 PBZ sing 248 n n C3 H3 PBZ sing 249 n n C5 C6 PBZ sing 250 n y C5 H5 PBZ sing 251 n n C6 C1 PBZ doub 252 n y C6 H6 PBZ sing 253 n n C1 N1 PBZ sing 254 n n N1 HN11 PBZ sing 255 n n N1 HN12 PBZ sing 256 n n # _atom_sites.entry_id 1RFN _atom_sites.fract_transf_matrix[1][1] 0.011001 _atom_sites.fract_transf_matrix[1][2] 0.006351 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012703 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.006596 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code C 3 CA A 1 500 500 CA CA . D 4 PBZ A 1 501 501 PBZ PBZ . E 5 TBU A 1 502 502 TBU TBU . F 6 HOH A 1 1 1 HOH HOH . F 6 HOH A 2 2 2 HOH HOH . F 6 HOH A 3 3 3 HOH HOH . F 6 HOH A 4 4 4 HOH HOH . F 6 HOH A 5 5 5 HOH HOH . F 6 HOH A 6 6 6 HOH HOH . F 6 HOH A 7 7 7 HOH HOH . F 6 HOH A 8 8 8 HOH HOH . F 6 HOH A 9 9 9 HOH HOH . F 6 HOH A 10 10 10 HOH HOH . F 6 HOH A 11 12 12 HOH HOH . F 6 HOH A 12 15 15 HOH HOH . G 6 HOH B 1 11 11 HOH HOH . G 6 HOH B 2 13 13 HOH HOH . G 6 HOH B 3 14 14 HOH HOH . G 6 HOH B 4 16 16 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 N N2 PBZ . . . D 4 20.903 14.83 55.734 1 16.91 ? N2 PBZ 501 A 1 HETATM 2 N N3 PBZ . . . D 4 19.942 13.208 57.031 1 21.4 ? N3 PBZ 501 A 1 HETATM 3 C C7 PBZ . . . D 4 19.829 14.142 56.1 1 21.29 ? C7 PBZ 501 A 1 HETATM 4 C C4 PBZ . . . D 4 18.564 14.346 55.556 1 22.17 ? C4 PBZ 501 A 1 HETATM 5 C C2 PBZ . . . D 4 16.199 13.815 55.481 1 21.03 ? C2 PBZ 501 A 1 HETATM 6 C C3 PBZ . . . D 4 17.472 13.586 55.981 1 20.94 ? C3 PBZ 501 A 1 HETATM 7 C C5 PBZ . . . D 4 18.343 15.344 54.602 1 22.77 ? C5 PBZ 501 A 1 HETATM 8 C C6 PBZ . . . D 4 17.069 15.583 54.094 1 22.97 ? C6 PBZ 501 A 1 HETATM 9 C C1 PBZ . . . D 4 16.001 14.817 54.543 1 21.54 ? C1 PBZ 501 A 1 HETATM 10 N N1 PBZ . . . D 4 14.779 15.076 54.1 1 19.02 ? N1 PBZ 501 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 10 #